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LeonChaoX
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lamindb

Track lineage, validate schemas, and annotate biological datasets with ontologies.

783|65|Updated Feb 27, 2026
Search Tags:#data lineage#schema validation#FAIR principles#lamin db#biological data management#ontology curation#reproducible pipelines
One-click install
npx skills add https://github.com/LeonChaoX/qinyan-academic-skills --skill lamindb-leonchaox
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: lamindb
Source: https://github.com/LeonChaoX/qinyan-academic-skills/tree/main/skills/05-%E7%94%9F%E7%89%A9%E4%BF%A1%E6%81%AF%E4%B8%8E%E5%9F%BA%E5%9B%A0%E7%BB%84%E5%AD%A6/lamindb
Command: npx skills add https://github.com/LeonChaoX/qinyan-academic-skills --skill lamindb-leonchaox

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill includes references (resource) components.

What problem does it solve?

LaminDB helps you stop losing context when managing biological datasets by capturing lineage, enforcing schema validation, and standardizing annotations so experiments remain reproducible and discoverable.

Core Features & Use Cases

  • FAIR biological data management: Turn raw biological datasets into queryable artifacts with consistent metadata.
  • Data lineage & reproducibility: Track how datasets were produced (inputs, parameters, transforms) so results can be reproduced.
  • Ontology-based curation: Validate and standardize cell types, tissues, genes, diseases, and other biological entities using biological ontologies (via Bionty).

Quick Start

Use the lamindb skill to set up tracking and curate your scRNA-seq data by validating schemas, standardizing ontology terms, and saving the curated, lineage-linked artifacts.

Frequently Asked Questions about lamindb

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I make biological data FAIR and reproducible in scRNA-seq pipelines?▼

Data lineage tracking for biological datasets captures inputs, parameters, and transforms so that results can be reproduced and discovered as queryable artifacts with consistent metadata.

What's the best way to validate schema and curate AnnData objects for spatial transcriptomics?▼

Validating schema and curating AnnData objects for spatial transcriptomics uses curator-driven validation to standardize biological entities and feature metadata into lineage-linked artifacts.

Can I use lamindb for ontology curation of flow cytometry data?▼

Yes, ontology curation for flow cytometry data is supported by validating and standardizing cell types, tissues, genes, and diseases using biological ontologies via Bionty integration.

Does lamindb work with workflow managers and MLOps tools for data lakehouse queries?▼

Yes, lamindb supports optional integrations with workflow managers and MLOps tools to apply data lakehouse query patterns across notebook, script, and workflow execution environments.

How do I track data lineage and artifact versioning for multi-modal biomedical pipelines?▼

Tracking data lineage and artifact versioning for multi-modal biomedical pipelines requires a LaminDB instance workflow to capture feature and feature-set metadata alongside transform records.

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